Each panel shows the correlation between the percent of all high-quality (preprocessed) reads that align to SARS-CoV-2 and the percent of all aligned mitochondrial reads that are from that species across all samples. The orange numbers give the squared Pearson correlation coefficient.
The options at the bottom allow you to select samples only from specific collection dates (click on the circles for those dates), only samples isolated from particular sources, or only samples with a sufficient number of total aligned mitochondrial reads.
The axis scale selection enables switching between the percentages or the log percentages computed after adding a pseudocount of 0.5.
Mouseover points for details on particular samples.
See https://github.com/jbloom/Huanan_market_samples for results files and a fully reproducible computational pipeline.
See https://jbloom.github.io/Huanan_market_samples for links to all interactive plots.